Gene detail

Detailed information of OS493_033806-T1 in Lophelia pertusa

Genomic Location: scaffold_274:231228...237338
NR annotation: KAJ7370181.1, Actin- protein 2/3 complex subunit 2 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9VIM5	Actin-related protein 2/3 complex subunit 2 OS=Drosophila melanogaster OX=7227 GN=Arpc2 PE=1 SV=2
O15144	Actin-related protein 2/3 complex subunit 2 OS=Homo sapiens OX=9606 GN=ARPC2 PE=1 SV=1
Q5R5Z5	Actin-related protein 2/3 complex subunit 2 OS=Pongo abelii OX=9601 GN=ARPC2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006335 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04045 all species →	P34-Arc	Arp2/3 complex, 34 kD subunit p34-Arc	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR034666 all species →	Homologous_superfamily	Arp2/3 complex subunit 2/4	Interproscan
IPR007188 all species →	Family	Actin-related protein 2/3 complex subunit 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12058 all species →	ARP2/3 COMPLEX 34 KDA SUBUNIT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005885 all species →	Cellular Component	Arp2/3 protein complex	Interproscan
GO:0015629 all species →	Cellular Component	actin cytoskeleton	Interproscan
GO:0030041 all species →	Biological Process	actin filament polymerization	Interproscan
GO:0034314 all species →	Biological Process	Arp2/3 complex-mediated actin nucleation	Interproscan
GO:0005200 all species →	Molecular Function	structural constituent of cytoskeleton	Interproscan
GO:0051015 all species →	Molecular Function	actin filament binding	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K05758	ARPC2; actin related protein 2/3 complex, subunit 2	-	Cytoskeleton proteins	ko04812	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_033806-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

110TPM > 0

7Conditions

221.3Max TPM

147.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	146.23	187.42
polyp at pH7 6	18	18	135.36	160.42
coral polyp · control treatment	16	16	160.41	190.69
coral polyp · oil and dispersant treatment	16	16	145.98	184.75
coral polyp · oil treatment	16	16	159.98	196.14
coral polyp · dispersant treatment	16	16	118.29	170.96
Polyp	10	10	178.44	221.29

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	187.42
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	166.56
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	164.98
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	158.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	157.80
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	155.19
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	147.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	145.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	144.52
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	143.10
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	137.73
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	137.59
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	137.24
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	136.94
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	135.43
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	130.91
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	124.98
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	121.52
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	160.42
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	150.52
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	147.05
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	143.53
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	141.45
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	140.62
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	140.53
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	140.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	139.75
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	138.41
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	138.15
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	134.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	132.33
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	130.32
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	127.18
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	119.71
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	106.37
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	104.83
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	190.69
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	188.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	182.85
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	179.18
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	172.25
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	169.65
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	168.28
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	166.20
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	164.34
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	163.63
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	160.13
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	145.82
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	138.78
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	136.96
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	120.40
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	118.76
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	184.75
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	181.16
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	165.24
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	162.05
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	159.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	157.78
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	155.33
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	155.25
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	146.84
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	137.89
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	137.04
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	134.44
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	131.01
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	123.86
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	114.80
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.64
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	196.14
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	192.78
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	189.71
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	184.60
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	181.06
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	178.05
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	168.94
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	166.55
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	161.38
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	153.95
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	146.54
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	143.62
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	137.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	137.43
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	117.15
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	103.95
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	170.96
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	148.01
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	144.04
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	142.60
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	128.76
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	124.60
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	123.86
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	122.23
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	117.79
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	117.40
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	106.90
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	105.53
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	98.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	92.41
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	77.60
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.40
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	221.29
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	200.88
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	198.31
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	195.22
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	192.97
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	180.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	180.01
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	162.13
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	138.87
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	114.40

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.